Basic Information
VIS ID
TVIS30004979
Fusion event
HIV-ATAD2 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr8
Cytoband
q24.13
Reference genome
GRCh37/hg19
Start
124375693/123363453 (Hg38)
End
124375693/123363453 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8C ; FRA8E
Target gene
ATAD2
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-941 ; hsa-mir-193b-3p ; hsa-mir-17-3p ; hsa-mir-372-3p ; hsa-mir-655-3p ; hsa-mir-374c-5p ; hsa-mir-4720-3p ; hsa-mir-4804-3p ; hsa-mir-3163 ; hsa-mir-4282 ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548n ; hsa-mir-106a-5p ; hsa-mir-17-5p ; hsa-mir-93-5p ; hsa-mir-20a-5p ; hsa-mir-519d-3p ; hsa-mir-526b-3p ; hsa-mir-20b-5p ; hsa-mir-520c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-520d-3p ; hsa-mir-302e ; hsa-mir-520e ; hsa-mir-302c-3p ; hsa-mir-302d-3p ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-520b ; hsa-mir-520f-3p
Nearest miRNA
hsa-mir-12123/Upstream/15323; hsa-mir-10400/Downstream/1145062;
Nearest TSS
ENST00000518652/Upstream/5832; ENST00000522194/Downstream/5935;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/88027, chr8-CpG: 101/Downstream/32399
Upstream sequence
acacagtgctggcttggagaccctagagatgttaatgttgccacactacatatgttgtgtgttatctgtaaatccagccaaaaagtctgaattctgaaac
Downstream sequence
acaaatggttttccaagggttttggataaggggttgtggaAACACAGAAATAAATGAGAAAATAATCTTTCACCCATCCACCTACCCAAATACACCAAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate